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VEGFA-derived hsa_circ_0076611 promotes proliferation by regulating translation initiation rate in triple-negative breast cancer

ABSTRACT: VEGFA-derived hsa_circ_0076611 promotes proliferation by regulating translation initiation rate in triple-negative breast cancer

PROVIDER: PRJNA762309 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15838448_1.fastq.gz	Fastqsanger.gz
	SRR15838448_2.fastq.gz	Fastqsanger.gz
	SRR15838449_1.fastq.gz	Fastqsanger.gz
	SRR15838449_2.fastq.gz	Fastqsanger.gz

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VEGFA-derived hsa_circ_0076611 promotes proliferation by regulating translation initiation rate in triple-negative breast cancer

Project description:Hsa_circ_0076611 is a circular RNA derived from back splicing of VEGFA exon 7 and expressed in triple-negative breast cancer (TNBC) cells and tissues. Through RNAseq analysis of hsa_circ_0076611-interacting RNAs, recovered by ChIRP assays, we here identified target mRNAs potentially controlled by hsa_circ_0076611 in MDA-MB-468 TNBC cells. Validation experiments confirmed that hsa_circ_0076611 interacts with and controls the expression of proliferation- and differentiation-related genes.

2022-06-08 | GSE183902 | GEO

Cas13bt3 knockdown of VEGFA mRNA in retinal organoid [scRNA-Seq]

Project description:Purpose: We report expression of a new Cas13 enzyme in retinal cells and evaluate its efficacy in targeting the VEGFA mRNA to establish safety and efficacy of the enzyme got anti-VEGFA therapy. Methods: Three retinal organoids were cultured and treated, (1) Untreated, (2) AAV2.7m8.Cas13bt3.VEGFA.sgRNA, (3) AAV2.7m8.Cas13bt3.NTsgRNA. Single-cell RNA sequencing was performed to determine expression of Cas13bt3 across retinal cell types, and the corresponding VEGFA mRNA expression. Results: All retinal cell showed observable transduction and RPE cells were found most susceptible to infection, while bipolar cells had the least infection rate. Significant silencing of VEGFA was observed in RPE cells. Conclusions: AAV2.7m8 can be used for retina-wide transduction, and Cas13bt3 may be a potential new tool for control of VEGFA.

2024-03-01 | GSE259219 | GEO

Competition between translation initiation factor eIF5 and its mimic protein 5MP determines non-AUG initiation rate genome-wide

Project description:The goal of this study is to evaluate the competition between eIF5 and 5MP in utilizing non-AUG translation initiation sites

2017-08-18 | GSE102786 | GEO

MeCP2 represses the rate of transcriptional initiation of highly methylated long genes

Project description:MeCP2 represses the rate of transcriptional initiation of highly methylated long genes

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MeCP2 represses the rate of transcriptional initiation of highly methylated long genes (NanoString)

Project description:MeCP2 represses the rate of transcriptional initiation of highly methylated long genes (NanoString)

| PRJNA526683 | ENA

MeCP2 represses the rate of transcriptional initiation of highly methylated long genes (HiC)

Project description:MeCP2 represses the rate of transcriptional initiation of highly methylated long genes (HiC)

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Deep sequencing reveals mRNA recruitment in translation initiation

Project description:We studied the initiation signals located in the translational initiation region (TIR) and identified the role for recognition of the initiation signals in each individual stage during formation of the initiation complexes. Sequencing the randomized mRNA libraries captured by translation initiation complexes

2016-07-27 | E-GEOD-69782 | biostudies-arrayexpress

Triple negative breast cancer subtypes and pathologic complete response rate to neoadjuvant chemotherapy

Project description:Triple negative breast cancer subtypes and pathologic complete response rate to neoadjuvant chemotherapy

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Cas13bt3 knockdown of VEGFA mRNA in mammalian cells and mouse retina [RNA-Seq]

Project description:Purpose: We report expression of a new Cas13 enzyme in retinal cells and evaluate its efficacy in targeting the VEGFA mRNA to establish safety and efficacy of the enzyme for anti-VEGFA therapy. Methods: Mammalian cells (HEK293FT) or mouse retina were treated with shRNA, CasRx or Cas13bt3 carrying VEGFA targeting sgRNA. Total RNA was collected for RNA seqeuencing to study VEGFA mRNA expression and well as off-target genes. Results: Significant knockdown of VEGFA mRNA was observed with no effect on predicted off-target genes in mammalina cells and mouse retina. No loss of mouse VEGFA was also detected. Conclusions: AAV2.7m8 can be used for retina-wide transduction, and Cas13bt3 may be a potential new tool for control of VEGFA.

2024-03-01 | GSE259220 | GEO

Etv6-dependent positive and negative gene regulatory network controls vegfa expression in vivo [ChIP-seq]

Project description:VEGFA signaling is crucial for physiological and pathological angiogenesis and hematopoiesis. Although many context-dependent signaling pathways downstream of VegfA have been uncovered, vegfa transcriptional regulation in vivo is unclear. Here, we show that ETS transcription factor Etv6 positively regulates vegfa expression during blood stem cell development through multiple transcriptional inputs. In agreement with its established repressive functions, Etv6 directly inhibits expression of vegfa repressor foxo3. Surprisingly, it also directly activates expression of vegfa activator klf4. Finally, it indirectly binds to vegfa promoter by the recruiment of Klf4. Thus, our work uncovers a dual function for Etv6, as both a transcriptional repressor and activator, in controlling a major signaling pathway.

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